Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   SIY77_RS16625 Genome accession   NZ_CP139125
Coordinates   3396834..3398267 (-) Length   477 a.a.
NCBI ID   WP_000809057.1    Uniprot ID   P24255
Organism   Escherichia coli strain YZ22PE244     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3391834..3403267
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SIY77_RS16590 elbB 3392525..3393178 (+) 654 WP_406682362.1 isoprenoid biosynthesis glyoxalase ElbB -
  SIY77_RS16595 mtgA 3393175..3393903 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  SIY77_RS16600 yrbL 3393900..3394532 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  SIY77_RS16605 npr 3394746..3395018 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  SIY77_RS16610 rapZ 3395015..3395869 (-) 855 WP_000243741.1 RNase adapter RapZ -
  SIY77_RS16615 ptsN 3395915..3396406 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  SIY77_RS16620 hpf 3396524..3396811 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  SIY77_RS16625 rpoN/rpoN1 3396834..3398267 (-) 1434 WP_000809057.1 RNA polymerase factor sigma-54 Machinery gene
  SIY77_RS16630 lptB 3398315..3399040 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  SIY77_RS16635 lptA 3399047..3399604 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  SIY77_RS16640 lptC 3399573..3400148 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  SIY77_RS16645 kdsC 3400145..3400711 (-) 567 WP_000030005.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  SIY77_RS16650 kdsD 3400732..3401718 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  SIY77_RS16655 yrbG 3401732..3402709 (-) 978 WP_000922901.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 53989.78 Da        Isoelectric Point: 4.3663

>NTDB_id=829314 SIY77_RS16625 WP_000809057.1 3396834..3398267(-) (rpoN/rpoN1) [Escherichia coli strain YZ22PE244]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED
ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=829314 SIY77_RS16625 WP_000809057.1 3396834..3398267(-) (rpoN/rpoN1) [Escherichia coli strain YZ22PE244]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
CGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGAAACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATAGGCGATGAAGAGATCGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTGGCGGCAAAAGATCTGCGTGACTGTCTGCTGATCCAACTCTCCCAATTCGATAAGACCACGCCGTGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTGAAGAAATT
AATCGCGGCGGAAAACCCAGCGAAACCGTTGAGCGACAGCAAGTTAACCTCTTTGCTGTCGGAACAAGGTATCATGGTGG
CACGCCGCACTGTTGCGAAGTACCGAGAGTCTTTATCCATTCCGCCGTCAAACCAGCGTAAACAACTCGTTTGA

Domains

Predicted by InterProScan.

Sigma-54 factor, Activator interacting domain (AID) (Sigma54_AID)

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-303)

Sigma-54, DNA binding domain (Sigma54_DBD)

(317-475)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  PDB 2MT3
  PDB 8F1I
  PDB 8F1J
  PDB 8F1K
  PDB 9MSE
  PDB 9MSF
  PDB 9MSG
  PDB 9MSH
  PDB 9MSJ

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  rpoN/rpoN1 Ralstonia pseudosolanacearum GMI1000

44.024

100

0.463